A Portal for Three-dimensional Structural Information about Nucleic Acids
As of 14-Aug-2019 number of released structures: 10334
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NDB ID: UR0008  PDB ID: 1DDY 


Base Pair Morphology Step Parameters

CSV Format

Model NumberStep NumberStep NameShiftSlideRiseTiltRollTwistX-DisplacementY-DisplacementHelical RiseInclinationTipHelical Twist
18AA_A31G32:C13A14_AA1.124-0.9273.48-2.018-1.524115.808-0.53-0.6863.474-0.8991.191115.826
16AA_C29G30:C11U15_AA3.267-0.481-1.75121.292-174.031-9.253-1.0261.48-1.01389.14710.907-175.344
11AA_G7G8:C21C22_AA0.994-1.3043.364-0.16711.81932.908-3.897-1.6822.74220.0750.28434.911
12AA_G8U9:A20C21_AA-1.066-1.5582.9851.4695.21231.733-3.6182.152.6519.445-2.66232.18
14AA_G26G28:C18C19_AA-2.16-1.1513.424-2.675-2.00453.452-1.1432.2183.559-2.2262.97153.549
15AA_G28C29:U15C18_AA2.786-1.4113.721-2.24710.3271.827-1.568-2.4383.4438.751.90572.496
17AA_G30A31:A14C11_AA-3.023-4.56-2.02191.087-29.144-84.2912.463-2.261-0.6217.88855.906-120.282
19AA_G32C33:G12C13_AA-0.116-1.4083.215-4.281-1.60539.036-1.905-0.3343.262-2.3926.3839.293
13AA_U9G26:C19A20_AA-0.989-1.2953.4196.0298.94947.718-2.2431.6523.00610.9-7.34348.853
117CC_A231G232:C213A214_CC1.012-0.7653.588-1.748-2.489115.491-0.423-0.6193.588-1.4721.033115.517
115CC_C229G230:C211U215_CC3.5271.749-1.3738.248-168.927-116.904-1.1181.754-0.3585.2624.163-174.318
110CC_G207G208:C221C222_CC1.141-1.8523.55411.28720.84632.937-5.019-0.3872.332.108-17.38540.388
111CC_G208U209:A220C221_CC-0.889-1.2863.058-5.7864.68334.096-2.8080.6652.9687.8719.72434.876
113CC_G226G228:C218C219_CC-2.715-1.0223.475-2.528-1.42457.946-0.9722.6553.602-1.4692.60858.012
114CC_G228C229:U215C218_CC2.799-1.5963.09-5.6127.42269.186-1.634-2.6282.7236.5074.91969.732
116CC_G230A231:A214C211_CC-3.165-4.246-1.64693.653-31.981-99.5282.227-2.073-0.50618.38153.827-130.374
118CC_G232C233:G212C213_CC-0.015-1.253.071-4.5092.21741.291-1.979-0.4242.9883.136.36541.582
112CC_U209G226:C219A220_CC-1.592-1.7183.2793.8052.35642.984-2.5562.5233.043.204-5.17643.206
126EE_A431G432:C413A414_EE0.927-0.7463.333-1.176-3.075112.028-0.413-0.5733.34-1.8540.709112.06
124EE_C429G430:C411U415_EE3.6811.848-1.50510.33-169.792-112.91-1.2061.825-0.36285.7155.215-174.538
119EE_G407G408:C421C422_EE0.969-1.8973.4795.4719.92328.721-5.858-0.8511.94735.017-9.61435.252
120EE_G408U409:A420C421_EE-0.804-1.2342.848-3.112.25634.275-2.3860.9362.8233.8135.25734.484
122EE_G426G428:C418C419_EE-2.142-0.7423.25-3.2260.40750.655-0.8942.273.3650.4753.76650.752
123EE_G428C429:U415C418_EE2.722-0.972.874-6.57411.14171.891-1.117-2.4692.59.4145.55572.891
125EE_G430A431:A414C411_EE-3.183-4.165-1.73890.29-31.095-99.2742.192-2.121-0.59118.0152.295-128.37
127EE_G432C433:G412C413_EE-0.255-1.143.168-0.308-0.52442.817-1.5110.3193.183-0.7170.42242.821
121EE_U409G426:C419A420_EE-1.948-1.323.9376.8965.8746.951-2.1643.0323.4557.289-8.56147.767
135GG_A631G632:C613A614_GG1.314-0.8093.324-2.05-0.177111.906-0.486-0.8173.309-0.1071.237111.918
133GG_C629G630:C611U615_GG3.560.825-2.2219.001-168.657-66.886-1.1991.744-0.786.814.633-170.739
128GG_G607G608:C621C622_GG0.381-1.4453.41-2.70813.95237.017-3.715-0.8692.68121.0484.08539.563
129GG_G608U609:A620C621_GG-0.951-1.7272.945-3.7384.32431.902-3.7681.1242.7837.7886.73332.397
131GG_G626G628:C618C619_GG-2.385-0.7083.541-3.967-1.16760.303-0.6412.1553.688-1.163.94460.431
132GG_G628C629:U615C618_GG2.54-1.9963.07-1.9194.68267.914-1.944-2.3352.884.1851.71568.08
134GG_G630A631:A614C611_GG-3.326-4.318-1.9190.77-38.591-92.6062.23-2.306-0.74222.74753.504-126.468
136GG_G632C633:G612C613_GG0.121-1.5693.478-5.835-3.24837.509-1.959-0.9863.539-5.0028.98738.077
130GG_U609G626:C619A620_GG-0.929-1.7443.358.9755.7945.643-2.6611.8912.8987.346-11.38646.81

The above values were obtained using first alternate conformation only and calculated by 3DNA program.
Xiang-Jun Lu & Wilma K. Olson (2003). '3DNA: a software package for the analysis, rebuilding and visualization of three-dimensional nucleic acid structures', Nucleic Acids Res.31(17), 5108-21.
Xiang-Jun Lu & Wilma K. Olson (2008). '3DNA: a versatile, integrated software system for the analysis, rebuilding and visualization of three-dimensional nucleic-acid structures', Nat Protoc.3(7), 1213-27.